<div dir="ltr">Hi Jörn,<div>Not a stupid question at all, because indeed there isn't. I thought that was the problem too; I already tried putting the .anatomy field of one of the (normalized) subjects into the grandavg structure, but that resulted in a bunch of errors due to an error in the cornerpoints function. </div>
<div>This is how the grandavg structure looks like after ft_sourcegrandaverage (fieldtrip version 20140127):</div><div><br></div><div><div> pos: [7109137x3 double]</div><div> dim: [181 217 181]</div><div> avg: [1x1 struct]</div>
<div> var: [1x1 struct]</div><div> dimord: 'voxel'</div><div> inside: [1550519x1 double]</div><div> outside: [5558618x1 double]</div><div> df: [7109137x1 double]</div><div> cfg: [1x1 struct]</div>
</div><div><br></div><div>This my cfg:</div><div><br></div><div><div>grandavg = cell(1,2);</div><div>cfg = [];</div><div>cfg.parameter = 'avg.pow';</div><div>cfg.keepindividual = 'no';</div><div>grandavg{1} = ft_sourcegrandaverage(cfg,sourceDiffAll{:,1}); % condition 1</div>
<div>grandavg{2} = ft_sourcegrandaverage(cfg,sourceDiffAll{:,2}); % condition 2</div></div><div><br></div><div>Hope you can find out what the problem is..!</div><div><br></div><div>Thanks a lot,</div><div>Joram</div><div>
<br></div>
</div><div class="gmail_extra"><br><br><div class="gmail_quote">On Mon, Feb 3, 2014 at 9:10 AM, "Jörn M. Horschig" <span dir="ltr"><<a href="mailto:jm.horschig@donders.ru.nl" target="_blank">jm.horschig@donders.ru.nl</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Joram,<br>
<br>
this might be a stupid question, but is there a grandavg{1}.anatomy field at all?<br>
<br>
Best,<br>
Jörn<div><div class="h5"><br>
<br>
On 1/31/2014 12:44 PM, Joram van Driel wrote:<br>
</div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div class="h5">
Hi all,<br>
<br>
I'm trying to plot the grand average of a source analysis. However no matter what I try, the result of ft_sourcegrandaverage keeps giving me only the functional data, no anatomy.<br>
<br>
My cfg for ft_sourceplot is:<br>
<br>
cfg = [];<br>
cfg.method = 'ortho';<br>
cfg.interactive = 'no';<br>
cfg.funparameter = 'avg.pow';<br>
cfg.maskparameter = cfg.funparameter;<br>
cfg.funcolorlim = [0 0.2];<br>
cfg.opacitylim = [0 0.2];<br>
cfg.opacitymap = 'rampup';<br>
<br>
ft_sourceplot(cfg,grandavg{1})<br>
<br>
I thus created my own grandaverage, like this (where sourceDiffAll{:,:} is a subject-by-condition cell structure):<br>
<br>
temp = zeros([length(nsubjects) size(sourceDiffAll{1,1}.avg.<u></u>pow)]);<br>
for s=1:length(nsubjects)<br>
temp(s,:,:,:) = sourceDiffAll{s,2}.avg.pow - sourceDiffAll{s,1}.avg.pow; % create condition contrast<br>
end<br>
customavg = sourceDiffAll{1,1}; % just copy one subject one condition<br>
customavg.avg.pow = squeeze(mean(temp,1)); % and replace power with the grand average power condition-contrast<br>
<br>
Now using ft_sourceplot on customavg works just fine.<br>
Any idea of what's going wrong with ft_sourceplot on ft_sourcegrandaverage?<br>
Thanks!<br>
<br>
- Joram<br>
<br>
<br>
-- <br>
Joram van Driel, MSc.<br>
PhD student @ University of Amsterdam<br>
Brain & Cognition @ Department of Psychology<br>
<br>
<br></div></div>
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</blockquote>
<br>
<br>
-- <br>
Jörn M. Horschig<br>
PhD Student<br>
Donders Institute for Brain, Cognition and Behaviour<br>
Centre for Cognitive Neuroimaging<br>
Radboud University Nijmegen<br>
Neuronal Oscillations Group<br>
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</blockquote></div><br><br clear="all"><div><br></div>-- <br><div dir="ltr">Joram van Driel, MSc.<div>PhD student @ University of Amsterdam</div><div>Brain & Cognition @ Department of Psychology</div></div>
</div>